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Sig_18_tissue_vs_Sig_18_Blood.manta.diploid_sv_custom.ann_snpEff.csv
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s3://natera-rnd-pltf-dev-nextflow-data-01/users/mipeters/semiproductionize/sarek/698115e9/test_regression_dev_b0193075/reports/raw_qc/snpeff/manta/Sig_18_tissue_vs_Sig_18_Blood/Sig_18_tissue_vs_Sig_18_Blood.manta.diploid_sv_custom.ann_snpEff.csv
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mipeters-regression-dev-698115e9
Published
Feb 02, 2026 1:43 PM

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# Summary table
Name , Value
Genome , GRCh38.105
Date , 2026-02-02 21:43
SnpEff_version , SnpEff 5.1d (build 2022-04-19 15:49), by Pablo Cingolani
Command_line_arguments , SnpEff GRCh38.105 -csvStats Sig_18_tissue_vs_Sig_18_Blood.manta.diploid_sv_custom.ann_snpEff.csv Sig_18_tissue_vs_Sig_18_Blood.manta.diploid_sv_custom.ann.vcf.gz
Warnings , 0
Number_of_lines_in_input_file, 1
Number_of_variants_before_filter, 1
Number_of_not_variants , 0
Number_of_variants_processed , 1
Number_of_known_variants (i.e. non-empty ID) , 1, 100%
Number_of_effects , 3
Genome_total_length ,63147197748
Genome_effective_length ,46709983
Change_rate , 46709983
# Change rate by chromosome
Chromosome , Length , Changes , Change_rate
21 , 46709983 , 1 , 46709983
# Variantss by type
Type , Count , Percent
INS , 1 , 100%
# Effects by impact
Type , Count , Percent
MODIFIER , 3 , 100%
# Effects by functional class
Type , Count , Percent
Missense_Silent_ratio, 0
# Count by effects
Type , Count , Percent
downstream_gene_variant , 1 , 33.333333%
intragenic_variant , 1 , 33.333333%
upstream_gene_variant , 1 , 33.333333%
# Count by genomic region
Type , Count , Percent
DOWNSTREAM , 1 , 33.333333%
TRANSCRIPT , 1 , 33.333333%
UPSTREAM , 1 , 33.333333%
# Quality
Values , 999
Count , 1
# InDel lengths
Values , 56
Count , 1
# Base changes
base , A , C , G , T
A , 0 , 0 , 0 , 0
C , 0 , 0 , 0 , 0
G , 0 , 0 , 0 , 0
T , 0 , 0 , 0 , 0
# Ts/Tv summary
Transitions , 0
Transversions , 0
Ts_Tv_ratio , 0
# Ts/Tv : All variants
No results available (empty input?)
# Ts/Tv : Known variants
No results available (empty input?)
# Allele frequency
# Allele frequency : All variants
Values , 100
Count , 1
# Allele Count
Values , 2
Count , 1
# Hom/Het table
Sample_names , Sig_18_Sig_18_Blood
Reference , 0
Het , 0
Hom , 1
Missing , 0
# Codon change table
codons
# Amino acid change table
aa
# Chromosome change table
21, Position,0,1000000,2000000,3000000,4000000,5000000,6000000,7000000,8000000,9000000,10000000,11000000,12000000,13000000,14000000,15000000,16000000,17000000,18000000,19000000,20000000,21000000,22000000,23000000,24000000,25000000,26000000,27000000,28000000,29000000,30000000,31000000,32000000,33000000,34000000,35000000,36000000,37000000,38000000,39000000,40000000,41000000,42000000,43000000,44000000,45000000,46000000
21,Count,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0
118 rows